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        Module&nbsp;lhs
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<h1 class="epydoc">Source Code for <a href="BIP.Bayes.lhs-module.html">Module BIP.Bayes.lhs</a></h1>
<pre class="py-src">
<a name="L1"></a><tt class="py-lineno">  1</tt>  <tt class="py-line"><tt class="py-comment">#!/usr/bin/python</tt> </tt>
<a name="L2"></a><tt class="py-lineno">  2</tt>  <tt class="py-line"><tt class="py-comment"># -*- coding:utf-8 -*-</tt> </tt>
<a name="L3"></a><tt class="py-lineno">  3</tt>  <tt class="py-line"><tt class="py-comment">#-----------------------------------------------------------------------------</tt> </tt>
<a name="L4"></a><tt class="py-lineno">  4</tt>  <tt class="py-line"><tt class="py-comment"># Name:        lhs.py</tt> </tt>
<a name="L5"></a><tt class="py-lineno">  5</tt>  <tt class="py-line"><tt class="py-comment"># Project:  Bayesian-Inference</tt> </tt>
<a name="L6"></a><tt class="py-lineno">  6</tt>  <tt class="py-line"><tt class="py-comment"># Purpose:     </tt> </tt>
<a name="L7"></a><tt class="py-lineno">  7</tt>  <tt class="py-line"><tt class="py-comment">#</tt> </tt>
<a name="L8"></a><tt class="py-lineno">  8</tt>  <tt class="py-line"><tt class="py-comment"># Author:      Fl&#225;vio Code&#231;o Coelho&lt;fccoelho@gmail.com&gt;</tt> </tt>
<a name="L9"></a><tt class="py-lineno">  9</tt>  <tt class="py-line"><tt class="py-comment">#</tt> </tt>
<a name="L10"></a><tt class="py-lineno"> 10</tt>  <tt class="py-line"><tt class="py-comment"># Created:     2008-11-26</tt> </tt>
<a name="L11"></a><tt class="py-lineno"> 11</tt>  <tt class="py-line"><tt class="py-comment"># Copyright:   (c) 2008 by the Author</tt> </tt>
<a name="L12"></a><tt class="py-lineno"> 12</tt>  <tt class="py-line"><tt class="py-comment"># Licence:     GPL</tt> </tt>
<a name="L13"></a><tt class="py-lineno"> 13</tt>  <tt class="py-line"><tt class="py-comment">#-----------------------------------------------------------------------------</tt> </tt>
<a name="L14"></a><tt class="py-lineno"> 14</tt>  <tt class="py-line"><tt class="py-name">__docformat__</tt> <tt class="py-op">=</tt> <tt class="py-docstring">"restructuredtext en"</tt> </tt>
<a name="L15"></a><tt class="py-lineno"> 15</tt>  <tt class="py-line"><tt class="py-comment">#from pylab import plot, figure,hist,show, savefig, legend</tt> </tt>
<a name="L16"></a><tt class="py-lineno"> 16</tt>  <tt class="py-line"><tt class="py-keyword">import</tt> <tt class="py-name">scipy</tt><tt class="py-op">.</tt><tt class="py-name">stats</tt> <tt class="py-keyword">as</tt> <tt class="py-name">stats</tt> </tt>
<a name="L17"></a><tt class="py-lineno"> 17</tt>  <tt class="py-line"><tt class="py-keyword">import</tt> <tt class="py-name">numpy</tt> </tt>
<a name="L18"></a><tt class="py-lineno"> 18</tt>  <tt class="py-line"><tt class="py-keyword">from</tt> <tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">linalg</tt> <tt class="py-keyword">import</tt> <tt class="py-name">cholesky</tt><tt class="py-op">,</tt><tt class="py-name">inv</tt> </tt>
<a name="L19"></a><tt class="py-lineno"> 19</tt>  <tt class="py-line"> </tt>
<a name="lhsFromSample"></a><div id="lhsFromSample-def"><a name="L20"></a><tt class="py-lineno"> 20</tt> <a class="py-toggle" href="#" id="lhsFromSample-toggle" onclick="return toggle('lhsFromSample');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="BIP.Bayes.lhs-module.html#lhsFromSample">lhsFromSample</a><tt class="py-op">(</tt><tt class="py-param">sample</tt><tt class="py-op">,</tt><tt class="py-param">siz</tt><tt class="py-op">=</tt><tt class="py-number">100</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="lhsFromSample-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="lhsFromSample-expanded"><a name="L21"></a><tt class="py-lineno"> 21</tt>  <tt class="py-line">    <tt class="py-docstring">"""</tt> </tt>
<a name="L22"></a><tt class="py-lineno"> 22</tt>  <tt class="py-line"><tt class="py-docstring">    Latin Hypercube Sample from a set of values.</tt> </tt>
<a name="L23"></a><tt class="py-lineno"> 23</tt>  <tt class="py-line"><tt class="py-docstring">    For univariate distributions only</tt> </tt>
<a name="L24"></a><tt class="py-lineno"> 24</tt>  <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L25"></a><tt class="py-lineno"> 25</tt>  <tt class="py-line"><tt class="py-docstring">    :Parameters:</tt> </tt>
<a name="L26"></a><tt class="py-lineno"> 26</tt>  <tt class="py-line"><tt class="py-docstring">        - `sample`: list, tuple of array</tt> </tt>
<a name="L27"></a><tt class="py-lineno"> 27</tt>  <tt class="py-line"><tt class="py-docstring">        - `siz`: Number or shape tuple for the output sample</tt> </tt>
<a name="L28"></a><tt class="py-lineno"> 28</tt>  <tt class="py-line"><tt class="py-docstring">    """</tt> </tt>
<a name="L29"></a><tt class="py-lineno"> 29</tt>  <tt class="py-line">    <tt class="py-comment">#TODO: add support to correlation restricted multivariate samples</tt> </tt>
<a name="L30"></a><tt class="py-lineno"> 30</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-keyword">not</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">sample</tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-name">list</tt><tt class="py-op">,</tt><tt class="py-name">tuple</tt><tt class="py-op">,</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">ndarray</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L31"></a><tt class="py-lineno"> 31</tt>  <tt class="py-line">        <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt class="py-string">'sample is not a list, tuple or numpy vector'</tt><tt class="py-op">)</tt> </tt>
<a name="L32"></a><tt class="py-lineno"> 32</tt>  <tt class="py-line">    <tt class="py-name">n</tt> <tt class="py-op">=</tt> <tt class="py-name">siz</tt> </tt>
<a name="L33"></a><tt class="py-lineno"> 33</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">,</tt><tt class="py-op">(</tt><tt class="py-name">tuple</tt><tt class="py-op">,</tt><tt class="py-name">list</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L34"></a><tt class="py-lineno"> 34</tt>  <tt class="py-line">        <tt class="py-name">n</tt><tt class="py-op">=</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">product</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">)</tt> </tt>
<a name="L35"></a><tt class="py-lineno"> 35</tt>  <tt class="py-line">    <tt class="py-name">perc</tt> <tt class="py-op">=</tt> <tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">arange</tt><tt class="py-op">(</tt><tt class="py-number">0</tt><tt class="py-op">,</tt><tt class="py-number">100.</tt><tt class="py-op">,</tt><tt class="py-number">100.</tt><tt class="py-op">/</tt><tt class="py-name">n</tt><tt class="py-op">)</tt> </tt>
<a name="L36"></a><tt class="py-lineno"> 36</tt>  <tt class="py-line">    <tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">random</tt><tt class="py-op">.</tt><tt class="py-name">shuffle</tt><tt class="py-op">(</tt><tt class="py-name">perc</tt><tt class="py-op">)</tt> </tt>
<a name="L37"></a><tt class="py-lineno"> 37</tt>  <tt class="py-line">    <tt class="py-name">smp</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">uniform</tt><tt class="py-op">(</tt><tt class="py-name">i</tt><tt class="py-op">,</tt><tt class="py-number">100.</tt><tt class="py-op">/</tt><tt class="py-name">n</tt><tt class="py-op">)</tt><tt class="py-op">.</tt><tt class="py-name">rvs</tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-keyword">for</tt> <tt class="py-name">i</tt> <tt class="py-keyword">in</tt> <tt class="py-name">perc</tt><tt class="py-op">]</tt> </tt>
<a name="L38"></a><tt class="py-lineno"> 38</tt>  <tt class="py-line">    <tt class="py-name">v</tt> <tt class="py-op">=</tt> <tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">array</tt><tt class="py-op">(</tt><tt class="py-op">[</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">scoreatpercentile</tt><tt class="py-op">(</tt><tt class="py-name">sample</tt><tt class="py-op">,</tt><tt class="py-name">p</tt><tt class="py-op">)</tt> <tt class="py-keyword">for</tt> <tt class="py-name">p</tt> <tt class="py-keyword">in</tt> <tt class="py-name">smp</tt><tt class="py-op">]</tt><tt class="py-op">)</tt> </tt>
<a name="L39"></a><tt class="py-lineno"> 39</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">,</tt><tt class="py-op">(</tt><tt class="py-name">tuple</tt><tt class="py-op">,</tt><tt class="py-name">list</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L40"></a><tt class="py-lineno"> 40</tt>  <tt class="py-line">        <tt class="py-name">v</tt><tt class="py-op">.</tt><tt class="py-name">shape</tt> <tt class="py-op">=</tt> <tt class="py-name">siz</tt> </tt>
<a name="L41"></a><tt class="py-lineno"> 41</tt>  <tt class="py-line">    <tt class="py-keyword">return</tt> <tt class="py-name">v</tt> </tt>
</div><a name="L42"></a><tt class="py-lineno"> 42</tt>  <tt class="py-line"> </tt>
<a name="lhsFromDensity"></a><div id="lhsFromDensity-def"><a name="L43"></a><tt class="py-lineno"> 43</tt> <a class="py-toggle" href="#" id="lhsFromDensity-toggle" onclick="return toggle('lhsFromDensity');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="BIP.Bayes.lhs-module.html#lhsFromDensity">lhsFromDensity</a><tt class="py-op">(</tt><tt class="py-param">kde</tt><tt class="py-op">,</tt><tt class="py-param">siz</tt><tt class="py-op">=</tt><tt class="py-number">100</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="lhsFromDensity-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="lhsFromDensity-expanded"><a name="L44"></a><tt class="py-lineno"> 44</tt>  <tt class="py-line">    <tt class="py-docstring">'''</tt> </tt>
<a name="L45"></a><tt class="py-lineno"> 45</tt>  <tt class="py-line"><tt class="py-docstring">    LHS sampling from a variable's Kernel density estimate.</tt> </tt>
<a name="L46"></a><tt class="py-lineno"> 46</tt>  <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L47"></a><tt class="py-lineno"> 47</tt>  <tt class="py-line"><tt class="py-docstring">    :Parameters:</tt> </tt>
<a name="L48"></a><tt class="py-lineno"> 48</tt>  <tt class="py-line"><tt class="py-docstring">        - `kde`: scipy.stats.kde.gaussian_kde object</tt> </tt>
<a name="L49"></a><tt class="py-lineno"> 49</tt>  <tt class="py-line"><tt class="py-docstring">        - `siz`: Number or shape tuple for the output sample</tt> </tt>
<a name="L50"></a><tt class="py-lineno"> 50</tt>  <tt class="py-line"><tt class="py-docstring">    '''</tt> </tt>
<a name="L51"></a><tt class="py-lineno"> 51</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-keyword">not</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">kde</tt><tt class="py-op">,</tt><tt class="py-name">scipy</tt><tt class="py-op">.</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">kde</tt><tt class="py-op">.</tt><tt class="py-name">gaussian_kde</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L52"></a><tt class="py-lineno"> 52</tt>  <tt class="py-line">        <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt class="py-string">"kde is not a density object"</tt><tt class="py-op">)</tt> </tt>
<a name="L53"></a><tt class="py-lineno"> 53</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">,</tt><tt class="py-op">(</tt><tt class="py-name">tuple</tt><tt class="py-op">,</tt><tt class="py-name">list</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L54"></a><tt class="py-lineno"> 54</tt>  <tt class="py-line">        <tt class="py-name">n</tt><tt class="py-op">=</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">product</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">)</tt> </tt>
<a name="L55"></a><tt class="py-lineno"> 55</tt>  <tt class="py-line">    <tt class="py-name">s</tt> <tt class="py-op">=</tt> <tt class="py-name">kde</tt><tt class="py-op">.</tt><tt class="py-name">resample</tt><tt class="py-op">(</tt><tt class="py-name">n</tt><tt class="py-op">)</tt> </tt>
<a name="L56"></a><tt class="py-lineno"> 56</tt>  <tt class="py-line">    <tt class="py-name">v</tt> <tt class="py-op">=</tt> <tt id="link-0" class="py-name" targets="Function BIP.Bayes.lhs.lhsFromSample()=BIP.Bayes.lhs-module.html#lhsFromSample"><a title="BIP.Bayes.lhs.lhsFromSample" class="py-name" href="#" onclick="return doclink('link-0', 'lhsFromSample', 'link-0');">lhsFromSample</a></tt><tt class="py-op">(</tt><tt class="py-name">s</tt><tt class="py-op">,</tt><tt class="py-name">n</tt><tt class="py-op">)</tt> </tt>
<a name="L57"></a><tt class="py-lineno"> 57</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">,</tt><tt class="py-op">(</tt><tt class="py-name">tuple</tt><tt class="py-op">,</tt><tt class="py-name">list</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L58"></a><tt class="py-lineno"> 58</tt>  <tt class="py-line">        <tt class="py-name">v</tt><tt class="py-op">.</tt><tt class="py-name">shape</tt> <tt class="py-op">=</tt> <tt class="py-name">siz</tt> </tt>
<a name="L59"></a><tt class="py-lineno"> 59</tt>  <tt class="py-line">    <tt class="py-keyword">return</tt> <tt class="py-name">v</tt> </tt>
</div><a name="L60"></a><tt class="py-lineno"> 60</tt>  <tt class="py-line"> </tt>
<a name="L61"></a><tt class="py-lineno"> 61</tt>  <tt class="py-line"> </tt>
<a name="lhs"></a><div id="lhs-def"><a name="L62"></a><tt class="py-lineno"> 62</tt> <a class="py-toggle" href="#" id="lhs-toggle" onclick="return toggle('lhs');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="BIP.Bayes.lhs-module.html#lhs">lhs</a><tt class="py-op">(</tt><tt class="py-param">dist</tt><tt class="py-op">,</tt> <tt class="py-param">parms</tt><tt class="py-op">,</tt> <tt class="py-param">siz</tt><tt class="py-op">=</tt><tt class="py-number">100</tt><tt class="py-op">,</tt> <tt class="py-param">noCorrRestr</tt><tt class="py-op">=</tt><tt class="py-name">False</tt><tt class="py-op">,</tt> <tt class="py-param">corrmat</tt><tt class="py-op">=</tt><tt class="py-name">None</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="lhs-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="lhs-expanded"><a name="L63"></a><tt class="py-lineno"> 63</tt>  <tt class="py-line">    <tt class="py-docstring">'''</tt> </tt>
<a name="L64"></a><tt class="py-lineno"> 64</tt>  <tt class="py-line"><tt class="py-docstring">    Latin Hypercube sampling of any distribution.</tt> </tt>
<a name="L65"></a><tt class="py-lineno"> 65</tt>  <tt class="py-line"><tt class="py-docstring">    dist is is a scipy.stats random number generator </tt> </tt>
<a name="L66"></a><tt class="py-lineno"> 66</tt>  <tt class="py-line"><tt class="py-docstring">    such as stats.norm, stats.beta, etc</tt> </tt>
<a name="L67"></a><tt class="py-lineno"> 67</tt>  <tt class="py-line"><tt class="py-docstring">    parms is a tuple with the parameters needed for </tt> </tt>
<a name="L68"></a><tt class="py-lineno"> 68</tt>  <tt class="py-line"><tt class="py-docstring">    the specified distribution.</tt> </tt>
<a name="L69"></a><tt class="py-lineno"> 69</tt>  <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L70"></a><tt class="py-lineno"> 70</tt>  <tt class="py-line"><tt class="py-docstring">    :Parameters:</tt> </tt>
<a name="L71"></a><tt class="py-lineno"> 71</tt>  <tt class="py-line"><tt class="py-docstring">        - `dist`: random number generator from scipy.stats module or a list of them.</tt> </tt>
<a name="L72"></a><tt class="py-lineno"> 72</tt>  <tt class="py-line"><tt class="py-docstring">        - `parms`: tuple of parameters as required for dist, or a list of them.</tt> </tt>
<a name="L73"></a><tt class="py-lineno"> 73</tt>  <tt class="py-line"><tt class="py-docstring">        - `siz` :number or shape tuple for the output sample</tt> </tt>
<a name="L74"></a><tt class="py-lineno"> 74</tt>  <tt class="py-line"><tt class="py-docstring">    '''</tt> </tt>
<a name="L75"></a><tt class="py-lineno"> 75</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-keyword">not</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">dist</tt><tt class="py-op">,</tt><tt class="py-op">(</tt><tt class="py-name">list</tt><tt class="py-op">,</tt><tt class="py-name">tuple</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L76"></a><tt class="py-lineno"> 76</tt>  <tt class="py-line">        <tt class="py-name">dists</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-name">dist</tt><tt class="py-op">]</tt> </tt>
<a name="L77"></a><tt class="py-lineno"> 77</tt>  <tt class="py-line">        <tt class="py-name">parms</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-name">parms</tt><tt class="py-op">]</tt> </tt>
<a name="L78"></a><tt class="py-lineno"> 78</tt>  <tt class="py-line">    <tt class="py-keyword">else</tt><tt class="py-op">:</tt> </tt>
<a name="L79"></a><tt class="py-lineno"> 79</tt>  <tt class="py-line">        <tt class="py-keyword">assert</tt> <tt class="py-name">len</tt><tt class="py-op">(</tt><tt class="py-name">dist</tt><tt class="py-op">)</tt> <tt class="py-op">==</tt> <tt class="py-name">len</tt><tt class="py-op">(</tt><tt class="py-name">parms</tt><tt class="py-op">)</tt> </tt>
<a name="L80"></a><tt class="py-lineno"> 80</tt>  <tt class="py-line">        <tt class="py-name">dists</tt> <tt class="py-op">=</tt> <tt class="py-name">dist</tt> </tt>
<a name="L81"></a><tt class="py-lineno"> 81</tt>  <tt class="py-line">    <tt class="py-name">indices</tt><tt class="py-op">=</tt><tt id="link-1" class="py-name" targets="Function BIP.Bayes.lhs.rank_restr()=BIP.Bayes.lhs-module.html#rank_restr"><a title="BIP.Bayes.lhs.rank_restr" class="py-name" href="#" onclick="return doclink('link-1', 'rank_restr', 'link-1');">rank_restr</a></tt><tt class="py-op">(</tt><tt class="py-name">nvars</tt><tt class="py-op">=</tt><tt class="py-name">len</tt><tt class="py-op">(</tt><tt class="py-name">dists</tt><tt class="py-op">)</tt><tt class="py-op">,</tt> <tt class="py-name">smp</tt><tt class="py-op">=</tt><tt class="py-name">siz</tt><tt class="py-op">,</tt> <tt class="py-name">noCorrRestr</tt><tt class="py-op">=</tt><tt class="py-name">noCorrRestr</tt><tt class="py-op">,</tt> <tt class="py-name">Corrmat</tt><tt class="py-op">=</tt><tt class="py-name">corrmat</tt><tt class="py-op">)</tt> </tt>
<a name="L82"></a><tt class="py-lineno"> 82</tt>  <tt class="py-line">    <tt class="py-name">smplist</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L83"></a><tt class="py-lineno"> 83</tt>  <tt class="py-line">    <tt class="py-keyword">for</tt> <tt class="py-name">j</tt><tt class="py-op">,</tt><tt class="py-name">d</tt> <tt class="py-keyword">in</tt> <tt class="py-name">enumerate</tt><tt class="py-op">(</tt><tt class="py-name">dists</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L84"></a><tt class="py-lineno"> 84</tt>  <tt class="py-line">        <tt class="py-keyword">if</tt> <tt class="py-keyword">not</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">d</tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">rv_discrete</tt><tt class="py-op">,</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">rv_continuous</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L85"></a><tt class="py-lineno"> 85</tt>  <tt class="py-line">            <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt class="py-string">'dist is not a scipy.stats distribution object'</tt><tt class="py-op">)</tt> </tt>
<a name="L86"></a><tt class="py-lineno"> 86</tt>  <tt class="py-line">        <tt class="py-name">n</tt><tt class="py-op">=</tt><tt class="py-name">siz</tt> </tt>
<a name="L87"></a><tt class="py-lineno"> 87</tt>  <tt class="py-line">        <tt class="py-keyword">if</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">,</tt><tt class="py-op">(</tt><tt class="py-name">tuple</tt><tt class="py-op">,</tt><tt class="py-name">list</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L88"></a><tt class="py-lineno"> 88</tt>  <tt class="py-line">            <tt class="py-name">n</tt><tt class="py-op">=</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">product</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">)</tt> </tt>
<a name="L89"></a><tt class="py-lineno"> 89</tt>  <tt class="py-line">        <tt class="py-comment">#force type to float for sage compatibility</tt> </tt>
<a name="L90"></a><tt class="py-lineno"> 90</tt>  <tt class="py-line">        <tt class="py-name">pars</tt> <tt class="py-op">=</tt> <tt class="py-name">tuple</tt><tt class="py-op">(</tt><tt class="py-op">[</tt><tt class="py-name">float</tt><tt class="py-op">(</tt><tt class="py-name">k</tt><tt class="py-op">)</tt> <tt class="py-keyword">for</tt> <tt class="py-name">k</tt> <tt class="py-keyword">in</tt> <tt class="py-name">parms</tt><tt class="py-op">[</tt><tt class="py-name">j</tt><tt class="py-op">]</tt><tt class="py-op">]</tt><tt class="py-op">)</tt> </tt>
<a name="L91"></a><tt class="py-lineno"> 91</tt>  <tt class="py-line">        <tt class="py-name">perc</tt> <tt class="py-op">=</tt> <tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">arange</tt><tt class="py-op">(</tt><tt class="py-number">1.</tt><tt class="py-op">,</tt><tt class="py-name">n</tt><tt class="py-op">+</tt><tt class="py-number">1</tt><tt class="py-op">)</tt><tt class="py-op">/</tt><tt class="py-op">(</tt><tt class="py-name">n</tt><tt class="py-op">+</tt><tt class="py-number">1</tt><tt class="py-op">)</tt> </tt>
<a name="L92"></a><tt class="py-lineno"> 92</tt>  <tt class="py-line">        <tt class="py-name">v</tt> <tt class="py-op">=</tt> <tt class="py-name">d</tt><tt class="py-op">(</tt><tt class="py-op">*</tt><tt class="py-name">pars</tt><tt class="py-op">)</tt><tt class="py-op">.</tt><tt class="py-name">ppf</tt><tt class="py-op">(</tt><tt class="py-name">perc</tt><tt class="py-op">)</tt> </tt>
<a name="L93"></a><tt class="py-lineno"> 93</tt>  <tt class="py-line">        <tt class="py-comment">#print numpy.isinf(indices[j].sum())</tt> </tt>
<a name="L94"></a><tt class="py-lineno"> 94</tt>  <tt class="py-line">        <tt class="py-name">index</tt><tt class="py-op">=</tt><tt class="py-name">map</tt><tt class="py-op">(</tt><tt class="py-name">int</tt><tt class="py-op">,</tt><tt class="py-name">indices</tt><tt class="py-op">[</tt><tt class="py-name">j</tt><tt class="py-op">]</tt><tt class="py-op">-</tt><tt class="py-number">1</tt><tt class="py-op">)</tt> </tt>
<a name="L95"></a><tt class="py-lineno"> 95</tt>  <tt class="py-line">        <tt class="py-name">v</tt> <tt class="py-op">=</tt> <tt class="py-name">v</tt><tt class="py-op">[</tt><tt class="py-name">index</tt><tt class="py-op">]</tt> </tt>
<a name="L96"></a><tt class="py-lineno"> 96</tt>  <tt class="py-line">        <tt class="py-keyword">if</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">siz</tt><tt class="py-op">,</tt><tt class="py-op">(</tt><tt class="py-name">tuple</tt><tt class="py-op">,</tt><tt class="py-name">list</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L97"></a><tt class="py-lineno"> 97</tt>  <tt class="py-line">            <tt class="py-name">v</tt><tt class="py-op">.</tt><tt class="py-name">shape</tt> <tt class="py-op">=</tt> <tt class="py-name">siz</tt> </tt>
<a name="L98"></a><tt class="py-lineno"> 98</tt>  <tt class="py-line">        <tt class="py-name">smplist</tt><tt class="py-op">.</tt><tt class="py-name">append</tt><tt class="py-op">(</tt><tt class="py-name">v</tt><tt class="py-op">)</tt> </tt>
<a name="L99"></a><tt class="py-lineno"> 99</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-name">len</tt><tt class="py-op">(</tt><tt class="py-name">dists</tt><tt class="py-op">)</tt> <tt class="py-op">==</tt> <tt class="py-number">1</tt><tt class="py-op">:</tt> </tt>
<a name="L100"></a><tt class="py-lineno">100</tt>  <tt class="py-line">        <tt class="py-keyword">return</tt> <tt class="py-name">smplist</tt><tt class="py-op">[</tt><tt class="py-number">0</tt><tt class="py-op">]</tt> </tt>
<a name="L101"></a><tt class="py-lineno">101</tt>  <tt class="py-line">    <tt class="py-keyword">return</tt> <tt class="py-name">smplist</tt> </tt>
</div><a name="L102"></a><tt class="py-lineno">102</tt>  <tt class="py-line"> </tt>
<a name="rank_restr"></a><div id="rank_restr-def"><a name="L103"></a><tt class="py-lineno">103</tt> <a class="py-toggle" href="#" id="rank_restr-toggle" onclick="return toggle('rank_restr');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="BIP.Bayes.lhs-module.html#rank_restr">rank_restr</a><tt class="py-op">(</tt><tt class="py-param">nvars</tt><tt class="py-op">=</tt><tt class="py-number">4</tt><tt class="py-op">,</tt> <tt class="py-param">smp</tt><tt class="py-op">=</tt><tt class="py-number">100</tt><tt class="py-op">,</tt> <tt class="py-param">noCorrRestr</tt><tt class="py-op">=</tt><tt class="py-name">False</tt><tt class="py-op">,</tt> <tt class="py-param">Corrmat</tt><tt class="py-op">=</tt><tt class="py-name">None</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="rank_restr-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="rank_restr-expanded"><a name="L104"></a><tt class="py-lineno">104</tt>  <tt class="py-line">    <tt class="py-docstring">"""</tt> </tt>
<a name="L105"></a><tt class="py-lineno">105</tt>  <tt class="py-line"><tt class="py-docstring">    Returns the indices for sampling variables with  </tt> </tt>
<a name="L106"></a><tt class="py-lineno">106</tt>  <tt class="py-line"><tt class="py-docstring">    the desired correlation structure.</tt> </tt>
<a name="L107"></a><tt class="py-lineno">107</tt>  <tt class="py-line"><tt class="py-docstring">    </tt> </tt>
<a name="L108"></a><tt class="py-lineno">108</tt>  <tt class="py-line"><tt class="py-docstring">    :Parameters:</tt> </tt>
<a name="L109"></a><tt class="py-lineno">109</tt>  <tt class="py-line"><tt class="py-docstring">        - `nvars`: number of variables</tt> </tt>
<a name="L110"></a><tt class="py-lineno">110</tt>  <tt class="py-line"><tt class="py-docstring">        - `smp`: number of samples</tt> </tt>
<a name="L111"></a><tt class="py-lineno">111</tt>  <tt class="py-line"><tt class="py-docstring">        - `noCorrRestr`: No correlation restriction if True</tt> </tt>
<a name="L112"></a><tt class="py-lineno">112</tt>  <tt class="py-line"><tt class="py-docstring">        - `Corrmat`: Correlation matrix. If None, assure uncorrelated samples.</tt> </tt>
<a name="L113"></a><tt class="py-lineno">113</tt>  <tt class="py-line"><tt class="py-docstring">    """</tt> </tt>
<a name="L114"></a><tt class="py-lineno">114</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt class="py-name">smp</tt><tt class="py-op">,</tt><tt class="py-op">(</tt><tt class="py-name">tuple</tt><tt class="py-op">,</tt><tt class="py-name">list</tt><tt class="py-op">)</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L115"></a><tt class="py-lineno">115</tt>  <tt class="py-line">            <tt class="py-name">smp</tt><tt class="py-op">=</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">product</tt><tt class="py-op">(</tt><tt class="py-name">smp</tt><tt class="py-op">)</tt> </tt>
<a name="L116"></a><tt class="py-lineno">116</tt>  <tt class="py-line">    <tt class="py-keyword">def</tt> <tt class="py-def-name">shuf</tt><tt class="py-op">(</tt><tt class="py-param">s</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L117"></a><tt class="py-lineno">117</tt>  <tt class="py-line">        <tt class="py-name">s1</tt><tt class="py-op">=</tt><tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L118"></a><tt class="py-lineno">118</tt>  <tt class="py-line">        <tt class="py-keyword">for</tt> <tt class="py-name">i</tt> <tt class="py-keyword">in</tt> <tt class="py-name">xrange</tt><tt class="py-op">(</tt><tt class="py-name">nvars</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L119"></a><tt class="py-lineno">119</tt>  <tt class="py-line">            <tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">random</tt><tt class="py-op">.</tt><tt class="py-name">shuffle</tt><tt class="py-op">(</tt><tt class="py-name">s</tt><tt class="py-op">)</tt> </tt>
<a name="L120"></a><tt class="py-lineno">120</tt>  <tt class="py-line">            <tt class="py-name">s1</tt><tt class="py-op">.</tt><tt class="py-name">append</tt><tt class="py-op">(</tt><tt class="py-name">s</tt><tt class="py-op">.</tt><tt class="py-name">copy</tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L121"></a><tt class="py-lineno">121</tt>  <tt class="py-line">        <tt class="py-keyword">return</tt> <tt class="py-name">s1</tt> </tt>
</div><a name="L122"></a><tt class="py-lineno">122</tt>  <tt class="py-line">    <tt class="py-keyword">if</tt> <tt class="py-name">noCorrRestr</tt> <tt class="py-keyword">or</tt> <tt class="py-name">nvars</tt> <tt class="py-op">==</tt><tt class="py-number">1</tt><tt class="py-op">:</tt> </tt>
<a name="L123"></a><tt class="py-lineno">123</tt>  <tt class="py-line">        <tt class="py-name">x</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">randint</tt><tt class="py-op">.</tt><tt class="py-name">rvs</tt><tt class="py-op">(</tt><tt class="py-number">1</tt><tt class="py-op">,</tt><tt class="py-name">smp</tt><tt class="py-op">+</tt><tt class="py-number">1</tt><tt class="py-op">,</tt><tt class="py-name">size</tt><tt class="py-op">=</tt><tt class="py-name">smp</tt><tt class="py-op">)</tt> <tt class="py-keyword">for</tt> <tt class="py-name">i</tt> <tt class="py-keyword">in</tt> <tt class="py-name">xrange</tt><tt class="py-op">(</tt><tt class="py-name">nvars</tt><tt class="py-op">)</tt><tt class="py-op">]</tt> </tt>
<a name="L124"></a><tt class="py-lineno">124</tt>  <tt class="py-line">    <tt class="py-keyword">else</tt><tt class="py-op">:</tt> </tt>
<a name="L125"></a><tt class="py-lineno">125</tt>  <tt class="py-line">        <tt class="py-keyword">if</tt> <tt class="py-name">Corrmat</tt> <tt class="py-op">==</tt> <tt class="py-name">None</tt><tt class="py-op">:</tt> </tt>
<a name="L126"></a><tt class="py-lineno">126</tt>  <tt class="py-line">            <tt class="py-name">C</tt><tt class="py-op">=</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">core</tt><tt class="py-op">.</tt><tt class="py-name">numeric</tt><tt class="py-op">.</tt><tt class="py-name">identity</tt><tt class="py-op">(</tt><tt class="py-name">nvars</tt><tt class="py-op">)</tt> </tt>
<a name="L127"></a><tt class="py-lineno">127</tt>  <tt class="py-line">        <tt class="py-keyword">else</tt><tt class="py-op">:</tt> </tt>
<a name="L128"></a><tt class="py-lineno">128</tt>  <tt class="py-line">            <tt class="py-keyword">if</tt> <tt class="py-name">Corrmat</tt><tt class="py-op">.</tt><tt class="py-name">shape</tt><tt class="py-op">[</tt><tt class="py-number">0</tt><tt class="py-op">]</tt> <tt class="py-op">!=</tt> <tt class="py-name">nvars</tt><tt class="py-op">:</tt> </tt>
<a name="L129"></a><tt class="py-lineno">129</tt>  <tt class="py-line">                <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt class="py-string">'Correlation matrix must be of rank %s'</tt><tt class="py-op">%</tt><tt class="py-name">nvars</tt><tt class="py-op">)</tt> </tt>
<a name="L130"></a><tt class="py-lineno">130</tt>  <tt class="py-line">            <tt class="py-name">C</tt><tt class="py-op">=</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">matrix</tt><tt class="py-op">(</tt><tt class="py-name">Corrmat</tt><tt class="py-op">)</tt> </tt>
<a name="L131"></a><tt class="py-lineno">131</tt>  <tt class="py-line">        <tt class="py-name">s0</tt><tt class="py-op">=</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">arange</tt><tt class="py-op">(</tt><tt class="py-number">1.</tt><tt class="py-op">,</tt><tt class="py-name">smp</tt><tt class="py-op">+</tt><tt class="py-number">1</tt><tt class="py-op">)</tt><tt class="py-op">/</tt><tt class="py-op">(</tt><tt class="py-name">smp</tt><tt class="py-op">+</tt><tt class="py-number">1.</tt><tt class="py-op">)</tt> </tt>
<a name="L132"></a><tt class="py-lineno">132</tt>  <tt class="py-line">        <tt class="py-name">s</tt><tt class="py-op">=</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">norm</tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">.</tt><tt class="py-name">ppf</tt><tt class="py-op">(</tt><tt class="py-name">s0</tt><tt class="py-op">)</tt> </tt>
<a name="L133"></a><tt class="py-lineno">133</tt>  <tt class="py-line">        <tt class="py-name">s1</tt> <tt class="py-op">=</tt> <tt class="py-name">shuf</tt><tt class="py-op">(</tt><tt class="py-name">s</tt><tt class="py-op">)</tt> </tt>
<a name="L134"></a><tt class="py-lineno">134</tt>  <tt class="py-line">        <tt class="py-name">S</tt><tt class="py-op">=</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">matrix</tt><tt class="py-op">(</tt><tt class="py-name">s1</tt><tt class="py-op">)</tt> </tt>
<a name="L135"></a><tt class="py-lineno">135</tt>  <tt class="py-line">        <tt class="py-name">P</tt><tt class="py-op">=</tt><tt class="py-name">cholesky</tt><tt class="py-op">(</tt><tt class="py-name">C</tt><tt class="py-op">)</tt> </tt>
<a name="L136"></a><tt class="py-lineno">136</tt>  <tt class="py-line">        <tt class="py-name">Q</tt><tt class="py-op">=</tt><tt class="py-name">cholesky</tt><tt class="py-op">(</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">corrcoef</tt><tt class="py-op">(</tt><tt class="py-name">S</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L137"></a><tt class="py-lineno">137</tt>  <tt class="py-line"> </tt>
<a name="L138"></a><tt class="py-lineno">138</tt>  <tt class="py-line">        <tt class="py-name">Final</tt><tt class="py-op">=</tt><tt class="py-name">S</tt><tt class="py-op">.</tt><tt class="py-name">transpose</tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">*</tt><tt class="py-name">inv</tt><tt class="py-op">(</tt><tt class="py-name">Q</tt><tt class="py-op">)</tt><tt class="py-op">.</tt><tt class="py-name">transpose</tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">*</tt><tt class="py-name">P</tt><tt class="py-op">.</tt><tt class="py-name">transpose</tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L139"></a><tt class="py-lineno">139</tt>  <tt class="py-line">        <tt class="py-name">x</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">rankdata</tt><tt class="py-op">(</tt><tt class="py-name">Final</tt><tt class="py-op">.</tt><tt class="py-name">transpose</tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">[</tt><tt class="py-name">i</tt><tt class="py-op">,</tt><tt class="py-op">]</tt><tt class="py-op">)</tt> <tt class="py-keyword">for</tt> <tt class="py-name">i</tt> <tt class="py-keyword">in</tt> <tt class="py-name">xrange</tt><tt class="py-op">(</tt><tt class="py-name">nvars</tt><tt class="py-op">)</tt><tt class="py-op">]</tt> </tt>
<a name="L140"></a><tt class="py-lineno">140</tt>  <tt class="py-line">    <tt class="py-keyword">return</tt> <tt class="py-name">x</tt> </tt>
</div><a name="L141"></a><tt class="py-lineno">141</tt>  <tt class="py-line"> </tt>
<a name="L142"></a><tt class="py-lineno">142</tt>  <tt class="py-line"><tt class="py-keyword">if</tt> <tt class="py-name">__name__</tt><tt class="py-op">==</tt><tt class="py-string">'__main__'</tt><tt class="py-op">:</tt> </tt>
<a name="L143"></a><tt class="py-lineno">143</tt>  <tt class="py-line">    <tt class="py-keyword">import</tt> <tt class="py-name">pylab</tt> <tt class="py-keyword">as</tt> <tt class="py-name">P</tt> </tt>
<a name="L144"></a><tt class="py-lineno">144</tt>  <tt class="py-line">    <tt class="py-name">dist</tt> <tt class="py-op">=</tt> <tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">norm</tt> </tt>
<a name="L145"></a><tt class="py-lineno">145</tt>  <tt class="py-line">    <tt class="py-comment">#dist = stats.beta</tt> </tt>
<a name="L146"></a><tt class="py-lineno">146</tt>  <tt class="py-line">    <tt class="py-name">pars</tt> <tt class="py-op">=</tt> <tt class="py-op">(</tt><tt class="py-number">50</tt><tt class="py-op">,</tt><tt class="py-number">1</tt><tt class="py-op">)</tt> </tt>
<a name="L147"></a><tt class="py-lineno">147</tt>  <tt class="py-line">    <tt class="py-comment">#pars = (1,5) #beta</tt> </tt>
<a name="L148"></a><tt class="py-lineno">148</tt>  <tt class="py-line">    <tt class="py-name">b</tt> <tt class="py-op">=</tt> <tt id="link-2" class="py-name" targets="Module BIP.Bayes.lhs=BIP.Bayes.lhs-module.html,Function BIP.Bayes.lhs.lhs()=BIP.Bayes.lhs-module.html#lhs"><a title="BIP.Bayes.lhs
BIP.Bayes.lhs.lhs" class="py-name" href="#" onclick="return doclink('link-2', 'lhs', 'link-2');">lhs</a></tt><tt class="py-op">(</tt><tt class="py-name">dist</tt><tt class="py-op">,</tt><tt class="py-name">pars</tt><tt class="py-op">,</tt><tt class="py-number">1000</tt><tt class="py-op">)</tt> </tt>
<a name="L149"></a><tt class="py-lineno">149</tt>  <tt class="py-line">    <tt class="py-name">cm</tt> <tt class="py-op">=</tt> <tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">array</tt><tt class="py-op">(</tt><tt class="py-op">[</tt><tt class="py-op">[</tt><tt class="py-number">1</tt><tt class="py-op">,</tt><tt class="py-number">.8</tt><tt class="py-op">]</tt><tt class="py-op">,</tt><tt class="py-op">[</tt><tt class="py-number">.8</tt><tt class="py-op">,</tt><tt class="py-number">1</tt><tt class="py-op">]</tt><tt class="py-op">]</tt><tt class="py-op">)</tt> </tt>
<a name="L150"></a><tt class="py-lineno">150</tt>  <tt class="py-line">    <tt class="py-name">c</tt><tt class="py-op">=</tt><tt id="link-3" class="py-name"><a title="BIP.Bayes.lhs
BIP.Bayes.lhs.lhs" class="py-name" href="#" onclick="return doclink('link-3', 'lhs', 'link-2');">lhs</a></tt><tt class="py-op">(</tt><tt class="py-op">[</tt><tt class="py-name">dist</tt><tt class="py-op">,</tt><tt class="py-name">dist</tt><tt class="py-op">]</tt><tt class="py-op">,</tt> <tt class="py-op">[</tt><tt class="py-name">pars</tt><tt class="py-op">,</tt><tt class="py-name">pars</tt><tt class="py-op">]</tt><tt class="py-op">,</tt><tt class="py-number">2000</tt><tt class="py-op">,</tt><tt class="py-name">False</tt><tt class="py-op">,</tt> <tt class="py-name">cm</tt><tt class="py-op">)</tt> </tt>
<a name="L151"></a><tt class="py-lineno">151</tt>  <tt class="py-line">    <tt class="py-keyword">print</tt> <tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">pearsonr</tt><tt class="py-op">(</tt><tt class="py-name">c</tt><tt class="py-op">[</tt><tt class="py-number">0</tt><tt class="py-op">]</tt><tt class="py-op">,</tt><tt class="py-name">c</tt><tt class="py-op">[</tt><tt class="py-number">1</tt><tt class="py-op">]</tt><tt class="py-op">)</tt><tt class="py-op">,</tt> <tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">spearmanr</tt><tt class="py-op">(</tt><tt class="py-name">c</tt><tt class="py-op">[</tt><tt class="py-number">0</tt><tt class="py-op">]</tt><tt class="py-op">,</tt><tt class="py-name">c</tt><tt class="py-op">[</tt><tt class="py-number">1</tt><tt class="py-op">]</tt><tt class="py-op">)</tt> </tt>
<a name="L152"></a><tt class="py-lineno">152</tt>  <tt class="py-line">    <tt class="py-comment">#P.hist(c[0],normed=1)#, label='c0 sample')</tt> </tt>
<a name="L153"></a><tt class="py-lineno">153</tt>  <tt class="py-line">    <tt class="py-name">P</tt><tt class="py-op">.</tt><tt id="link-4" class="py-name" targets="Method BIP.Viz.realtime.RTplot.scatter()=BIP.Viz.realtime.RTplot-class.html#scatter"><a title="BIP.Viz.realtime.RTplot.scatter" class="py-name" href="#" onclick="return doclink('link-4', 'scatter', 'link-4');">scatter</a></tt><tt class="py-op">(</tt><tt class="py-name">c</tt><tt class="py-op">[</tt><tt class="py-number">0</tt><tt class="py-op">]</tt><tt class="py-op">,</tt><tt class="py-name">c</tt><tt class="py-op">[</tt><tt class="py-number">1</tt><tt class="py-op">]</tt><tt class="py-op">)</tt> </tt>
<a name="L154"></a><tt class="py-lineno">154</tt>  <tt class="py-line">    <tt class="py-comment">#P.hist(c[1],normed=1)#, label='c1 sample')</tt> </tt>
<a name="L155"></a><tt class="py-lineno">155</tt>  <tt class="py-line">    <tt class="py-keyword">print</tt> <tt class="py-name">c</tt><tt class="py-op">[</tt><tt class="py-number">0</tt><tt class="py-op">]</tt><tt class="py-op">.</tt><tt class="py-name">shape</tt><tt class="py-op">,</tt><tt class="py-name">c</tt><tt class="py-op">[</tt><tt class="py-number">1</tt><tt class="py-op">]</tt><tt class="py-op">.</tt><tt class="py-name">shape</tt> </tt>
<a name="L156"></a><tt class="py-lineno">156</tt>  <tt class="py-line">    <tt class="py-name">n</tt> <tt class="py-op">=</tt> <tt class="py-name">dist</tt><tt class="py-op">(</tt><tt class="py-op">*</tt><tt class="py-name">pars</tt><tt class="py-op">)</tt><tt class="py-op">.</tt><tt class="py-name">rvs</tt><tt class="py-op">(</tt><tt class="py-name">size</tt><tt class="py-op">=</tt><tt class="py-number">20</tt><tt class="py-op">)</tt> </tt>
<a name="L157"></a><tt class="py-lineno">157</tt>  <tt class="py-line">    <tt class="py-comment">#hist(n.ravel(),facecolor='r',alpha =0.3,normed=1, label='Regular sample')</tt> </tt>
<a name="L158"></a><tt class="py-lineno">158</tt>  <tt class="py-line">    <tt class="py-comment">#plot(numpy.arange(min(min(c),min(n)),max(max(c),max(n)),.1),dist(*pars).pdf(numpy.arange(min(min(c),min(n)),max(max(c),max(n)),.1)),label='PDF')</tt> </tt>
<a name="L159"></a><tt class="py-lineno">159</tt>  <tt class="py-line">    <tt class="py-comment">#legend()</tt> </tt>
<a name="L160"></a><tt class="py-lineno">160</tt>  <tt class="py-line">    <tt class="py-comment">#savefig('lhs.png',dpi=400)</tt> </tt>
<a name="L161"></a><tt class="py-lineno">161</tt>  <tt class="py-line">    <tt id="link-5" class="py-name"><a title="BIP.Bayes.lhs
BIP.Bayes.lhs.lhs" class="py-name" href="#" onclick="return doclink('link-5', 'lhs', 'link-2');">lhs</a></tt><tt class="py-op">(</tt><tt class="py-op">[</tt><tt class="py-name">stats</tt><tt class="py-op">.</tt><tt class="py-name">norm</tt><tt class="py-op">]</tt><tt class="py-op">*</tt><tt class="py-number">19</tt><tt class="py-op">,</tt><tt class="py-op">[</tt><tt class="py-op">(</tt><tt class="py-number">0</tt><tt class="py-op">,</tt><tt class="py-number">1</tt><tt class="py-op">)</tt><tt class="py-op">]</tt><tt class="py-op">*</tt><tt class="py-number">19</tt><tt class="py-op">,</tt><tt class="py-number">17</tt><tt class="py-op">,</tt><tt class="py-name">False</tt><tt class="py-op">,</tt><tt class="py-name">numpy</tt><tt class="py-op">.</tt><tt class="py-name">identity</tt><tt class="py-op">(</tt><tt class="py-number">19</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L162"></a><tt class="py-lineno">162</tt>  <tt class="py-line">    <tt class="py-name">P</tt><tt class="py-op">.</tt><tt class="py-name">show</tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L163"></a><tt class="py-lineno">163</tt>  <tt class="py-line">     </tt>
<a name="L164"></a><tt class="py-lineno">164</tt>  <tt class="py-line"> </tt>
<a name="L165"></a><tt class="py-lineno">165</tt>  <tt class="py-line"><tt class="py-comment">#TODO: Extend lhsFromSample to allow multivariate correlated sampling</tt> </tt>
<a name="L166"></a><tt class="py-lineno">166</tt>  <tt class="py-line"> </tt><script type="text/javascript">
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